AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene08720

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene08720.t1 MTR_4g059780 98.214 280 5 0 1 280 24 303 0.0 548
MS.gene08720.t1 MTR_2g093980 61.092 293 92 9 1 280 1 284 1.08e-102 301
MS.gene08720.t1 MTR_2g017960 52.669 281 121 5 1 277 1 273 5.82e-77 235
MS.gene08720.t1 MTR_8g087450 49.097 277 119 5 16 278 16 284 7.56e-75 230
MS.gene08720.t1 MTR_2g017970 58.095 210 82 3 67 275 68 272 1.30e-74 229
MS.gene08720.t1 MTR_4g059840 52.874 261 105 8 14 262 18 272 1.15e-73 227
MS.gene08720.t1 MTR_4g059790 52.232 224 92 5 50 262 53 272 1.59e-71 222
MS.gene08720.t1 MTR_4g053380 48.399 281 123 7 14 278 20 294 1.65e-69 217
MS.gene08720.t1 MTR_4g059720 51.835 218 76 4 1 218 4 192 1.12e-65 206
MS.gene08720.t1 MTR_8g087470 52.361 233 96 7 36 254 51 282 3.11e-63 201
MS.gene08720.t1 MTR_8g087460 52.402 229 96 6 38 254 55 282 4.49e-63 201
MS.gene08720.t1 MTR_2g017950 45.926 270 116 7 1 250 2 261 1.32e-62 199
MS.gene08720.t1 MTR_2g093970 49.537 216 101 3 2 214 6 216 9.94e-62 197
MS.gene08720.t1 MTR_2g093990 49.770 217 98 3 67 280 41 249 2.68e-57 184
MS.gene08720.t1 MTR_7g101080 49.032 155 77 2 63 216 36 189 1.48e-42 146
MS.gene08720.t1 MTR_2g090765 38.509 161 98 1 56 216 27 186 1.51e-28 109
MS.gene08720.t1 MTR_5g098060 32.184 174 107 4 67 233 48 217 5.79e-18 81.6
MS.gene08720.t1 MTR_7g075453 30.808 198 114 6 50 237 169 353 1.83e-15 76.3
MS.gene08720.t1 MTR_5g098420 32.743 113 75 1 103 215 227 338 6.51e-13 68.6
MS.gene08720.t1 MTR_3g460780 33.913 115 75 1 101 215 223 336 1.05e-11 65.1
MS.gene08720.t1 MTR_2g437700 31.169 154 99 4 67 216 195 345 1.13e-11 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene08720.t1 AT5G03170 37.991 229 135 3 53 279 22 245 6.42e-48 160
MS.gene08720.t1 AT5G60490 50.000 150 73 2 67 215 39 187 1.69e-45 154
MS.gene08720.t1 AT2G20520 38.542 192 109 4 60 243 31 221 4.53e-30 114
MS.gene08720.t1 AT5G44130 35.533 197 119 5 67 259 36 228 2.06e-29 112
MS.gene08720.t1 AT1G03870 32.195 205 134 4 67 270 39 239 5.07e-26 103
MS.gene08720.t1 AT3G46550 31.169 154 98 5 67 215 207 357 5.00e-15 75.1
MS.gene08720.t1 AT4G12730 34.862 218 126 8 49 259 171 379 2.14e-14 73.2
MS.gene08720.t1 AT3G60900 27.869 183 122 4 50 229 173 348 4.90e-12 66.2
MS.gene08720.t1 AT2G45470 30.968 155 92 3 67 216 189 333 9.24e-12 65.1
MS.gene08720.t1 AT5G55730 33.613 119 72 2 104 219 219 333 8.95e-11 62.4
MS.gene08720.t1 AT5G55730 33.613 119 72 2 104 219 219 333 8.95e-11 62.4

Find 50 sgRNAs with CRISPR-Local

Find 74 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGTGATGGTGCTGTTGCTTT+TGG 0.250966 4.2:+43861346 None:intergenic
TACCTTGATCCTGATCATTT+TGG 0.263017 4.2:+43860723 None:intergenic
GGCTCCTAAAGCTGCTAATA+AGG 0.272377 4.2:-43860771 MS.gene08720:CDS
CAAGCTCGCGATTTATCATT+TGG 0.291478 4.2:-43860870 MS.gene08720:CDS
TCTGTTGAGTCTGGTGATTC+AGG 0.294510 4.2:+43861301 None:intergenic
CGCTACTAAGGCACCTGCTT+TGG 0.312281 4.2:-43860819 MS.gene08720:CDS
CCACTTAATGTTTATGCATC+AGG 0.321174 4.2:-43860959 MS.gene08720:CDS
TTCTCCTTATTAGCAGCTTT+AGG 0.349370 4.2:+43860767 None:intergenic
TTACCAGCTATTGTTTGAAC+AGG 0.356173 4.2:+43860998 None:intergenic
TATCACAACAATCCTCAAAA+AGG 0.369979 4.2:-43861263 MS.gene08720:CDS
GTGAGATTGTGTGGAATTCT+TGG 0.371931 4.2:-43860689 MS.gene08720:CDS
GATCAGGATCAAGGTAAATC+TGG 0.376467 4.2:-43860716 MS.gene08720:CDS
AGGATTGTTGTGATATCGTC+AGG 0.386010 4.2:+43861271 None:intergenic
ACATTAAGTGGAAGCCTTGT+TGG 0.400783 4.2:+43860971 None:intergenic
AACAATGTCAGTCTTTCAAC+CGG 0.416183 4.2:-43860935 MS.gene08720:CDS
GTTGTTACTGCTTCCGTTGT+GGG 0.419419 4.2:-43860911 MS.gene08720:CDS
CTTGAAAATGCTGAATCGTC+TGG 0.426953 4.2:+43861133 None:intergenic
CCTGATGCATAAACATTAAG+TGG 0.445735 4.2:+43860959 None:intergenic
AACTCGTGCTGCTGCTGCTA+AGG 0.446593 4.2:-43860792 MS.gene08720:CDS
GGGACGGAGTCTGTTGAGTC+TGG 0.453003 4.2:+43861292 None:intergenic
AATGTGGGGACTAATGATTT+TGG 0.458446 4.2:+43861325 None:intergenic
TTAGCAGCAGCAGCACGAGT+TGG 0.460626 4.2:+43860794 None:intergenic
GCACGAGTTGGAGCCAAAGC+AGG 0.464102 4.2:+43860806 None:intergenic
TTTGAGCTCGCTACATATTG+AGG 0.476279 4.2:+43861040 None:intergenic
TCGTGATTTCTTCGCTACTA+AGG 0.488348 4.2:-43860831 MS.gene08720:CDS
TGATCAAGACCAAAATGATC+AGG 0.490187 4.2:-43860732 MS.gene08720:CDS
AACCCTGTTCAAACAATAGC+TGG 0.497527 4.2:-43861001 MS.gene08720:CDS
ATGATTCAGGTGCTTGTGAA+AGG 0.511644 4.2:+43861401 None:intergenic
GACCAAAATGATCAGGATCA+AGG 0.527131 4.2:-43860725 MS.gene08720:CDS
GGTTGTTACTGCTTCCGTTG+TGG 0.541810 4.2:-43860912 MS.gene08720:CDS
AGTTAAGGAACCCTGCTTTG+AGG 0.547004 4.2:+43861110 None:intergenic
GTCTGGTGATTCAGGTAATG+TGG 0.576222 4.2:+43861309 None:intergenic
CTACATATTGAGGTAAGATG+TGG 0.578300 4.2:+43861050 None:intergenic
TGATTCAGGTGCTTGTGAAA+GGG 0.580955 4.2:+43861402 None:intergenic
TTGTTGCTGTAGCAATGATG+TGG 0.582648 4.2:-43860649 MS.gene08720:CDS
TCTGGTGATTCAGGTAATGT+GGG 0.585032 4.2:+43861310 None:intergenic
ACAATGTCAGTCTTTCAACC+GGG 0.598947 4.2:-43860934 MS.gene08720:CDS
TACCAGCTATTGTTTGAACA+GGG 0.607680 4.2:+43860999 None:intergenic
TGCTTGTGAAAGGGATAATG+TGG 0.613574 4.2:+43861411 None:intergenic
ATGCTGAATCGTCTGGCGCG+AGG 0.616806 4.2:+43861140 None:intergenic
TCTGGAGCAGTGAGATTGTG+TGG 0.636283 4.2:-43860698 MS.gene08720:CDS
TGTTGTGATATCGTCAGGGA+CGG 0.636966 4.2:+43861276 None:intergenic
GGATTGTTGTGATATCGTCA+GGG 0.668131 4.2:+43861272 None:intergenic
CAATGTCAGTCTTTCAACCG+GGG 0.675430 4.2:-43860933 MS.gene08720:CDS
AGTGTACACAACACCCACAA+CGG 0.678067 4.2:+43860898 None:intergenic
CTGGTGATTCAGGTAATGTG+GGG 0.679078 4.2:+43861311 None:intergenic
TGGAATTCTTGGAACAACGT+TGG 0.689897 4.2:-43860678 MS.gene08720:CDS
AACGGAAGCAGTAACAACCC+CGG 0.701266 4.2:+43860916 None:intergenic
TAGCTGGTAAAGATCCAACA+AGG 0.719387 4.2:-43860985 MS.gene08720:CDS
TTAGTAGCGAAGAAATCACG+AGG 0.758452 4.2:+43860833 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! GATTTTTTTGTTTTCGTCTA+AGG + chr4.2:43861022-43861041 None:intergenic 25.0%
!!! GTGTTTTTTTTGGAGATTTT+GGG + chr4.2:43860732-43860751 None:intergenic 25.0%
!!! TCATGATTTCTGTTGTTTTT+AGG + chr4.2:43860897-43860916 None:intergenic 25.0%
!!! TGTTTTTTTTGGAGATTTTG+GGG + chr4.2:43860731-43860750 None:intergenic 25.0%
TATCACAACAATCCTCAAAA+AGG - chr4.2:43860843-43860862 MS.gene08720:CDS 30.0%
!!! GGTGTTTTTTTTGGAGATTT+TGG + chr4.2:43860733-43860752 None:intergenic 30.0%
!!! TTTCTGTTGTTTTTAGGAGA+CGG + chr4.2:43860891-43860910 None:intergenic 30.0%
AACAATGTCAGTCTTTCAAC+CGG - chr4.2:43861171-43861190 MS.gene08720:CDS 35.0%
CCACTTAATGTTTATGCATC+AGG - chr4.2:43861147-43861166 MS.gene08720:CDS 35.0%
CCTGATGCATAAACATTAAG+TGG + chr4.2:43861150-43861169 None:intergenic 35.0%
CTACATATTGAGGTAAGATG+TGG + chr4.2:43861059-43861078 None:intergenic 35.0%
TACCAGCTATTGTTTGAACA+GGG + chr4.2:43861110-43861129 None:intergenic 35.0%
TGATCAAGACCAAAATGATC+AGG - chr4.2:43861374-43861393 MS.gene08720:CDS 35.0%
TTACCAGCTATTGTTTGAAC+AGG + chr4.2:43861111-43861130 None:intergenic 35.0%
TTCTCCTTATTAGCAGCTTT+AGG + chr4.2:43861342-43861361 None:intergenic 35.0%
! AATGTGGGGACTAATGATTT+TGG + chr4.2:43860784-43860803 None:intergenic 35.0%
! AGAATGTTTTCGCCTTTTTG+AGG + chr4.2:43860858-43860877 None:intergenic 35.0%
! TACCTTGATCCTGATCATTT+TGG + chr4.2:43861386-43861405 None:intergenic 35.0%
! TGTTTTCGTCTAAGGAGTTA+AGG + chr4.2:43861014-43861033 None:intergenic 35.0%
!!! TTGTTTTTAGGAGACGGATT+AGG + chr4.2:43860885-43860904 None:intergenic 35.0%
AACCCTGTTCAAACAATAGC+TGG - chr4.2:43861105-43861124 MS.gene08720:CDS 40.0%
ACAATGTCAGTCTTTCAACC+GGG - chr4.2:43861172-43861191 MS.gene08720:CDS 40.0%
AGGATTGTTGTGATATCGTC+AGG + chr4.2:43860838-43860857 None:intergenic 40.0%
ATGATTCAGGTGCTTGTGAA+AGG + chr4.2:43860708-43860727 None:intergenic 40.0%
CAAGCTCGCGATTTATCATT+TGG - chr4.2:43861236-43861255 MS.gene08720:CDS 40.0%
CTTGAAAATGCTGAATCGTC+TGG + chr4.2:43860976-43860995 None:intergenic 40.0%
GACCAAAATGATCAGGATCA+AGG - chr4.2:43861381-43861400 MS.gene08720:CDS 40.0%
GATCAGGATCAAGGTAAATC+TGG - chr4.2:43861390-43861409 MS.gene08720:CDS 40.0%
GGATTGTTGTGATATCGTCA+GGG + chr4.2:43860837-43860856 None:intergenic 40.0%
GTGAGATTGTGTGGAATTCT+TGG - chr4.2:43861417-43861436 MS.gene08720:CDS 40.0%
TAGCTGGTAAAGATCCAACA+AGG - chr4.2:43861121-43861140 MS.gene08720:CDS 40.0%
TCGTGATTTCTTCGCTACTA+AGG - chr4.2:43861275-43861294 MS.gene08720:CDS 40.0%
TCTGGTGATTCAGGTAATGT+GGG + chr4.2:43860799-43860818 None:intergenic 40.0%
TGATTCAGGTGCTTGTGAAA+GGG + chr4.2:43860707-43860726 None:intergenic 40.0%
TGCTTGTGAAAGGGATAATG+TGG + chr4.2:43860698-43860717 None:intergenic 40.0%
TGGAATTCTTGGAACAACGT+TGG - chr4.2:43861428-43861447 MS.gene08720:CDS 40.0%
TTAGTAGCGAAGAAATCACG+AGG + chr4.2:43861276-43861295 None:intergenic 40.0%
TTGTTGCTGTAGCAATGATG+TGG - chr4.2:43861457-43861476 MS.gene08720:CDS 40.0%
TTTGAGCTCGCTACATATTG+AGG + chr4.2:43861069-43861088 None:intergenic 40.0%
! ACATTAAGTGGAAGCCTTGT+TGG + chr4.2:43861138-43861157 None:intergenic 40.0%
!! CATTTTCAAGCCTCAAAGCA+GGG - chr4.2:43860986-43861005 MS.gene08720:CDS 40.0%
!! GGGACTAATGATTTTGGTGA+TGG + chr4.2:43860778-43860797 None:intergenic 40.0%
!!! TTTTAGGAGACGGATTAGGA+CGG + chr4.2:43860881-43860900 None:intergenic 40.0%
AGTGTACACAACACCCACAA+CGG + chr4.2:43861211-43861230 None:intergenic 45.0%
AGTTAAGGAACCCTGCTTTG+AGG + chr4.2:43860999-43861018 None:intergenic 45.0%
CAATGTCAGTCTTTCAACCG+GGG - chr4.2:43861173-43861192 MS.gene08720:CDS 45.0%
CAGCTCATCACAGCCAAAAA+CGG - chr4.2:43860931-43860950 MS.gene08720:CDS 45.0%
CTGGTGATTCAGGTAATGTG+GGG + chr4.2:43860798-43860817 None:intergenic 45.0%
GGCTCCTAAAGCTGCTAATA+AGG - chr4.2:43861335-43861354 MS.gene08720:CDS 45.0%
GTCTGGTGATTCAGGTAATG+TGG + chr4.2:43860800-43860819 None:intergenic 45.0%
GTTGTTACTGCTTCCGTTGT+GGG - chr4.2:43861195-43861214 MS.gene08720:CDS 45.0%
TCTGTTGAGTCTGGTGATTC+AGG + chr4.2:43860808-43860827 None:intergenic 45.0%
TGTTGTGATATCGTCAGGGA+CGG + chr4.2:43860833-43860852 None:intergenic 45.0%
!! GATTGTTAAGCCGCCGTTTT+TGG + chr4.2:43860947-43860966 None:intergenic 45.0%
!! GCATTTTCAAGCCTCAAAGC+AGG - chr4.2:43860985-43861004 MS.gene08720:CDS 45.0%
!! GGAGATTTTGGGGATGATTC+AGG + chr4.2:43860721-43860740 None:intergenic 45.0%
!!! GTGATGGTGCTGTTGCTTTT+GGG + chr4.2:43860762-43860781 None:intergenic 45.0%
!!! TGATGGTGCTGTTGCTTTTG+GGG + chr4.2:43860761-43860780 None:intergenic 45.0%
AACGGAAGCAGTAACAACCC+CGG + chr4.2:43861193-43861212 None:intergenic 50.0%
CTCATCACAGCCAAAAACGG+CGG - chr4.2:43860934-43860953 MS.gene08720:CDS 50.0%
GGTTGTTACTGCTTCCGTTG+TGG - chr4.2:43861194-43861213 MS.gene08720:CDS 50.0%
! TCTGGAGCAGTGAGATTGTG+TGG - chr4.2:43861408-43861427 MS.gene08720:CDS 50.0%
!!! GGGGTAGGGGGTGTTTTTTT+TGG + chr4.2:43860742-43860761 None:intergenic 50.0%
!!! GGTGATGGTGCTGTTGCTTT+TGG + chr4.2:43860763-43860782 None:intergenic 50.0%
!!! GTGCTGTTGCTTTTGGGGTA+GGG + chr4.2:43860756-43860775 None:intergenic 50.0%
!!! TGCTGTTGCTTTTGGGGTAG+GGG + chr4.2:43860755-43860774 None:intergenic 50.0%
TTAGCAGCAGCAGCACGAGT+TGG + chr4.2:43861315-43861334 None:intergenic 55.0%
! AACTCGTGCTGCTGCTGCTA+AGG - chr4.2:43861314-43861333 MS.gene08720:CDS 55.0%
! CGCTACTAAGGCACCTGCTT+TGG - chr4.2:43861287-43861306 MS.gene08720:CDS 55.0%
!!! GCTGTTGCTTTTGGGGTAGG+GGG + chr4.2:43860754-43860773 None:intergenic 55.0%
!!! GGTGCTGTTGCTTTTGGGGT+AGG + chr4.2:43860757-43860776 None:intergenic 55.0%
ATGCTGAATCGTCTGGCGCG+AGG + chr4.2:43860969-43860988 None:intergenic 60.0%
GGGACGGAGTCTGTTGAGTC+TGG + chr4.2:43860817-43860836 None:intergenic 60.0%
! GCACGAGTTGGAGCCAAAGC+AGG + chr4.2:43861303-43861322 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 43860643 43861485 43860643 ID=MS.gene08720
chr4.2 mRNA 43860643 43861485 43860643 ID=MS.gene08720.t1;Parent=MS.gene08720
chr4.2 exon 43860643 43861485 43860643 ID=MS.gene08720.t1.exon1;Parent=MS.gene08720.t1
chr4.2 CDS 43860643 43861485 43860643 ID=cds.MS.gene08720.t1;Parent=MS.gene08720.t1
Gene Sequence

>MS.gene08720

ATGAAACAAGTAACTTTATTCTTTTTCTTTTCACTCTTTCTTCTCTTTTCATCCACATTATCCCTTTCACAAGCACCTGAATCATCCCCAAAATCTCCAAAAAAAACACCCCCTACCCCAAAAGCAACAGCACCATCACCAAAATCATTAGTCCCCACATTACCTGAATCACCAGACTCAACAGACTCCGTCCCTGACGATATCACAACAATCCTCAAAAAGGCGAAAACATTCTCCGTCCTAATCCGTCTCCTAAAAACAACAGAAATCATGAGCAGCGTAAACTCACAGCTCATCACAGCCAAAAACGGCGGCTTAACAATCCTCGCGCCAGACGATTCAGCATTTTCAAGCCTCAAAGCAGGGTTCCTTAACTCCTTAGACGAAAACAAAAAAATCGAACTTTTACAATTCCACATCTTACCTCAATATGTAGCGAGCTCAAACTTCGATTCTTTAAGCAACCCTGTTCAAACAATAGCTGGTAAAGATCCAACAAGGCTTCCACTTAATGTTTATGCATCAGGTAACAATGTCAGTCTTTCAACCGGGGTTGTTACTGCTTCCGTTGTGGGTGTTGTGTACACTGATAACAAGCTCGCGATTTATCATTTGGATAAAGTGCTTCTTCCTCGTGATTTCTTCGCTACTAAGGCACCTGCTTTGGCTCCAACTCGTGCTGCTGCTGCTAAGGCTCCTAAAGCTGCTAATAAGGAGAATTCTTCTGCTGATGATCAAGACCAAAATGATCAGGATCAAGGTAAATCTGGAGCAGTGAGATTGTGTGGAATTCTTGGAACAACGTTGGTGTCTTTTGTTGCTGTAGCAATGATGTGGAGTTGA
Protein sequence

>MS.gene08720.t1

MKQVTLFFFFSLFLLFSSTLSLSQAPESSPKSPKKTPPTPKATAPSPKSLVPTLPESPDSTDSVPDDITTILKKAKTFSVLIRLLKTTEIMSSVNSQLITAKNGGLTILAPDDSAFSSLKAGFLNSLDENKKIELLQFHILPQYVASSNFDSLSNPVQTIAGKDPTRLPLNVYASGNNVSLSTGVVTASVVGVVYTDNKLAIYHLDKVLLPRDFFATKAPALAPTRAAAAKAPKAANKENSSADDQDQNDQDQGKSGAVRLCGILGTTLVSFVAVAMMWS